Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012710.1 Kokia drynarioides strain JFW-HI SEQ_127721, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 13685
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33


Found at i:6869 original size:11 final size:12

Alignment explanation


    Indices: 6843--6871  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

       6833 TGATTAAAAT

                        
       6843 TTATATGTTAAA
          1 TTATATGTTAAA

                        
       6855 TTATATGTT-AA
          1 TTATATGTTAAA

                  
       6866 TTATAT
          1 TTATAT

       6872 TATAATAAAG


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  11    8  0.47
  12    9  0.53

ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55


Consensus pattern (12 bp):   
TTATATGTTAAA

Found at i:11671 original size:15 final size:14

Alignment explanation


    Indices: 11617--11681  Score: 54
    Period size: 12  Copynumber: 5.0  Consensus size: 14

      11607 CGGCACAAAA

                    *     
      11617 TCTTCTTCATTTTC
          1 TCTTCTTCCTTTTC

                          
      11631 T-TTC-TCCTTTTC
          1 TCTTCTTCCTTTTC

                           
      11643 T-TCTCTTCC--TTC
          1 TCT-TCTTCCTTTTC

                           
      11655 T-TT-TTCTCTTTTC
          1 TCTTCTTC-CTTTTC

                          
      11668 TCTTCTTCCTTTTC
          1 TCTTCTTCCTTTTC

      11682 AACACCCATA


Statistics
Matches: 43,  Mismatches: 1, Indels: 14
        0.74            0.02        0.24

Matches are distributed among these distances:
  10    3  0.07
  11    2  0.05
  12   14  0.33
  13    9  0.21
  14   12  0.28
  15    3  0.07

ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66


Consensus pattern (14 bp):   
TCTTCTTCCTTTTC

Found at i:11674 original size:25 final size:26

Alignment explanation


    Indices: 11617--11681  Score: 82
    Period size: 25  Copynumber: 2.5  Consensus size: 26

      11607 CGGCACAAAA

                    *                 
      11617 TCTTCTTCATTTTCTTTCTCCTTTTC
          1 TCTTCTTCCTTTTCTTTCTCCTTTTC

                                        
      11643 T-TCTCTTCCTTCTT-TTTCT-CTTTTC
          1 TCT-TCTTCCTT-TTCTTTCTCCTTTTC

                          
      11668 TCTTCTTCCTTTTC
          1 TCTTCTTCCTTTTC

      11682 AACACCCATA


Statistics
Matches: 34,  Mismatches: 1, Indels: 9
        0.77            0.02        0.20

Matches are distributed among these distances:
  24    2  0.06
  25   16  0.47
  26   14  0.41
  27    2  0.06

ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66


Consensus pattern (26 bp):   
TCTTCTTCCTTTTCTTTCTCCTTTTC
Done.